class TaxonomyProcessor
PRG_NAME = "tap"
- PRG_DATE = "2013.03.22"
+ PRG_DATE = "130411"
PRG_DESC = "replacement of species names in multiple sequence files"
- PRG_VERSION = "2.001"
+ PRG_VERSION = "2.002"
COPYRIGHT = "2013 Christian M Zmasek"
CONTACT = "phylosoft@gmail.com"
WWW = "https://sites.google.com/site/cmzmasek/home/software/forester"
def modify_name( desc, counter, file, extract_taxonomy )
new_desc = nil
desc.gsub!( /\s+/, ' ' )
- if desc =~ /^>?\s*\S{1,10}_(([A-Z9][A-Z]{2}[A-Z0-9]{2})|RAT|PIG|PEA|CAP)/
- new_desc = counter.to_s( 16 ) + "_" + $1
- elsif extract_taxonomy
+ #if desc =~ /^>?\s*\S{1,10}_(([A-Z9][A-Z]{2}[A-Z0-9]{2})|RAT|PIG|PEA|CAP)/
+ # new_desc = counter.to_s( 16 ) + "_" + $1
+ if extract_taxonomy
if desc =~/\s\[(([A-Z9][A-Z]{2}[A-Z0-9]{2})|RAT|PIG|PEA|CAP)\]/
new_desc = counter.to_s( 16 ) + "_" + $1
else